Docs/preprocessing specifications - #174
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Pull request overview
Updates the BraTS orchestrator documentation to spell out per-track preprocessing requirements, and extends the built-in preprocessing router to support the Brain Metastases 2025 native-space preprocessing path (with tests to lock in expected routing behavior).
Changes:
- Added a native-space co-registration + BET preprocessing pipeline and routed BraTS25 metastases algorithms to it.
- Expanded preprocessing documentation with per-track specifications and updated metastases atlas notes.
- Added unit tests that validate routing differences between BraTS23 (SRI24) and BraTS25 (native space) metastases preprocessing.
Reviewed changes
Copilot reviewed 5 out of 5 changed files in this pull request and generated 1 comment.
Show a summary per file
| File | Description |
|---|---|
brats/preprocessing.py |
Adds native-space preprocessing pipeline and updates preprocess_for_challenge routing for metastases. |
tests/test_preprocessing.py |
Adds tests for the new wrapper and metastases routing behavior using a stubbed brainles_preprocessing module. |
docs/guides/preprocessing.md |
Adds detailed preprocessing specifications by task/year and documents the new native-space wrapper. |
docs/snippets/algorithm-tables/metastases.md |
Updates metastases atlas note to distinguish BraTS 2023 (SRI24) vs 2025+ (native space). |
docs/glossary.md |
Updates atlas glossary entries and links to the preprocessing guide for task-specific requirements. |
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attempt to port the doc additions from #146 while addressing review comments and adding the preprocessing update for 2025 + metastates